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Identifying bacterial promoters is an important step towards understanding gene regulation. In this paper, we address the problem of predicting the location of promoters and their transcription start sites (TSSs) in Escherichia coli. The accepted method for this problem is to use position weight matrices (PWMs), which define conserved motifs at… (More)

Identifying bacterial promoters is the key to understanding gene expression. Promoters lie in tightly constrained positions relative to the transcription start site (TSS). Knowing the TSS position, one can predict promoter positions to within a few base pairs, and vice versa. As a route to promoter identification , we formally address the problem of TSS… (More)

Identifying promoters is the key to understanding gene expression in bacteria. Promoters lie in tightly constrained positions relative to the transcription start site (TSS). In this paper, we address the problem of predicting transcription start sites in Escherichia coli. Knowing the TSS position, one can then predict the promoter position to within a few… (More)